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nitrosylated Fe-type nitrile hydratase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AHJ PDB ENTRY 2AHJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 20% PEG 8000, 0.1M Tris-HCl PH7.5, 300mM MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.51 50.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.657 α = 90 b = 60.548 β = 124.97 c = 81.92 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 2006-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0000 Photon Factory BL-5A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.3 67.116 98.8 113080 10.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2AHJ 1.3 7.96 105634 5554 98.73 0.16827 0.16736 0.1674 0.18566 0.1859 RANDOM 15.122
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.111 r_dihedral_angle_4_deg 18.816 r_dihedral_angle_3_deg 10.298 r_dihedral_angle_1_deg 5.32 r_scangle_it 2.087 r_scbond_it 1.403 r_angle_refined_deg 1.146 r_mcangle_it 0.929 r_mcbond_it 0.635 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.111 r_dihedral_angle_4_deg 18.816 r_dihedral_angle_3_deg 10.298 r_dihedral_angle_1_deg 5.32 r_scangle_it 2.087 r_scbond_it 1.403 r_angle_refined_deg 1.146 r_mcangle_it 0.929 r_mcbond_it 0.635 r_nbtor_refined 0.307 r_nbd_refined 0.222 r_symmetry_hbond_refined 0.135 r_symmetry_vdw_refined 0.13 r_xyhbond_nbd_refined 0.1 r_chiral_restr 0.077 r_metal_ion_refined 0.034 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3286 Nucleic Acid Atoms Solvent Atoms 780 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing